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IPPS
2006
IEEE
16 years 15 days ago
Parallel implementation of the replica exchange molecular dynamics algorithm on Blue Gene/L
The Replica Exchange method is a popular approach for studying the folding thermodynamics of small to modest size proteins in explicit solvent, since it is easily parallelized. Ho...
Maria Eleftheriou, Aleksandr Rayshubskiy, Jed W. P...
CHI
2010
ACM
15 years 8 months ago
Sequential art for science and CHI
This paper illustrates our preliminary studies of new interactive tools that support the generation of sequential art for entertainment, learning and scientific discourse. In the ...
Duncan Rowland, Dan Porter, Mel Gibson, Kevin Walk...
CMSB
2010
Springer
15 years 1 months ago
Stochasticity in reactions: a probabilistic Boolean modeling approach
Boolean modeling frameworks have long since proved their worth for capturing and analyzing essential characteristics of complex systems. Hybrid approaches aim at exploiting the ad...
Sven Twardziok, Heike Siebert, Alexander Heyl
CIBCB
2007
IEEE
16 years 25 days ago
Spectral Decomposition of Signaling Networks
—Many dynamical processes can be represented as directed attributed graphs or Petri nets where relationships between various entities are explicitly expressed. Signaling networks...
Bahram Parvin, Nirmalya Ghosh, Laura Heiser, Merri...
CIBCB
2007
IEEE
16 years 25 days ago
Evolving Extremal Epidemic Networks
The susceptible, infected, removed model for epidemics assumes that the population in which the epidemic takes place is well mixed. This strong assumption can be relaxed by permit...
Dan Ashlock, Fatemeh Jafargholi